* using log directory ‘/srv/hornik/tmp/CRAN/arlclustering.Rcheck’ * using R Under development (unstable) (2024-07-25 r86925) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 18.1.8 (1+b1) Debian flang-new version 18.1.8 (1+b1) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘arlclustering/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘arlclustering’ version ‘1.0.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/3s] NOTE Maintainer: ‘Med El-MOUSSAOUI ’ New submission Possibly misspelled words in DESCRIPTION: ARL (3:8) ARLClustering (8:14) preprocess (8:163) The Description field should not start with the package name, 'This package' or similar. * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking serialization versions ... OK * checking whether package ‘arlclustering’ can be installed ... [4s/4s] OK * checking package directory ... OK * checking for future file timestamps ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Maintainer field differs from that derived from Authors@R Maintainer: ‘Med El-MOUSSAOUI ’ Authors@R: ‘Mohamed El-Moussaoui ’ * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [6s/6s] OK * checking Rd files ... [0s/0s] OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [4s/5s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [16s/17s] ERROR Running ‘testthat.R’ [16s/16s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(arlclustering) > > test_check("arlclustering") Loading required package: Matrix Attaching package: 'arules' The following objects are masked from 'package:base': abbreviate, write Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.1 2 maxlen target ext 27186 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 33 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[350 item(s), 334 transaction(s)] done [0.00s]. sorting and recoding items ... [45 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 4 5 6 7 8 done [0.00s]. writing ... [27186 rule(s)] done [0.00s]. creating S4 object ... done [0.00s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 6 ========================= Community 01 : 9 32 37 54 61 115 126 130 145 154 172 173 176 196 206 208 213 229 230 241 261 268 272 293 297 314 318 323 331 348 356 361 369 Community 02 : 37 54 61 115 126 130 145 154 161 172 173 176 196 206 208 213 229 230 241 268 272 293 297 314 318 323 331 348 356 361 369 Community 03 : 61 115 126 129 130 145 154 161 172 173 176 196 206 208 213 229 230 241 261 265 268 272 293 297 314 318 323 331 348 356 361 369 Community 04 : 146 173 Community 05 : 173 196 206 208 246 261 272 293 314 318 348 361 369 Community 06 : 291 293 ========================= Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.011 2 maxlen target ext 5700 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 12 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[1247 item(s), 1140 transaction(s)] done [0.00s]. sorting and recoding items ... [40 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 4 5 6 7 8 done [0.04s]. writing ... [875908 rule(s)] done [0.09s]. creating S4 object ... done [0.15s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 4 ========================= Community 01 : 34 35 55 Community 02 : 646 1430 1431 1432 1433 1434 1435 1436 1437 1438 1439 1440 1441 1442 1443 1444 1445 1446 1447 1448 Community 03 : 914 917 Community 04 : 917 1202 ========================= Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.05 2 maxlen target ext 201 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 2 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[62 item(s), 53 transaction(s)] done [0.00s]. sorting and recoding items ... [46 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 4 done [0.00s]. writing ... [201 rule(s)] done [0.00s]. creating S4 object ... done [0.00s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 17 ========================= Community 01 : 2 8 14 26 58 Community 02 : 6 7 18 42 Community 03 : 7 10 14 18 42 58 Community 04 : 9 37 Community 05 : 10 14 18 55 58 Community 06 : 11 43 Community 07 : 15 17 21 34 38 39 41 44 Community 08 : 16 30 52 Community 09 : 17 34 35 39 41 44 51 Community 10 : 18 27 42 55 Community 11 : 19 22 25 30 46 52 Community 12 : 22 25 30 44 46 51 52 Community 13 : 34 38 39 53 Community 14 : 38 39 51 60 Community 15 : 42 55 58 Community 16 : 43 48 Community 17 : 44 53 ========================= Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.1 1 maxlen target ext 66 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 2 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[34 item(s), 28 transaction(s)] done [0.00s]. sorting and recoding items ... [22 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 4 done [0.00s]. writing ... [66 rule(s)] done [0.00s]. creating S4 object ... done [0.00s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 12 ========================= Community 01 : 1 2 3 4 8 14 Community 02 : 2 3 4 8 9 14 Community 03 : 3 4 8 14 31 32 34 Community 04 : 5 6 Community 05 : 7 11 Community 06 : 9 14 32 33 Community 07 : 14 20 Community 08 : 24 32 34 Community 09 : 28 33 Community 10 : 29 33 Community 11 : 30 34 Community 12 : 33 34 ========================= Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.04 2 maxlen target ext 51764 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 2 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[77 item(s), 59 transaction(s)] done [0.00s]. sorting and recoding items ... [50 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 4 5 6 7 8 9 10 11 done [0.00s]. writing ... [51774 rule(s)] done [0.01s]. creating S4 object ... done [0.01s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 7 ========================= Community 01 : 12 17 24 25 26 27 28 30 35 36 37 38 39 42 49 50 52 55 56 58 59 60 61 62 63 64 65 66 67 69 70 71 72 76 77 Community 02 : 17 18 19 20 21 22 23 24 Community 03 : 24 25 26 27 28 32 49 56 69 70 71 72 Community 04 : 25 26 27 28 30 32 42 44 49 56 59 69 70 71 72 73 76 Community 05 : 26 27 28 30 32 42 44 49 50 52 56 58 59 63 65 69 70 71 72 73 76 Community 06 : 30 32 35 36 37 38 39 Community 07 : 43 69 70 71 ========================= Apriori Parameter specification: confidence minval smax arem aval originalSupport maxtime support minlen 0.5 0.1 1 none FALSE TRUE 5 0.05 2 maxlen target ext 79 rules TRUE Algorithmic control: filter tree heap memopt load sort verbose 0.1 TRUE TRUE FALSE TRUE 2 TRUE Absolute minimum support count: 5 set item appearances ...[0 item(s)] done [0.00s]. set transactions ...[112 item(s), 102 transaction(s)] done [0.00s]. sorting and recoding items ... [63 item(s)] done [0.00s]. creating transaction tree ... done [0.00s]. checking subsets of size 1 2 3 done [0.00s]. writing ... [79 rule(s)] done [0.00s]. creating S4 object ... done [0.00s]. Significant rule set is the same as the redundant rule set...Total Identified Clusters: 10 ========================= Community 01 : 2 3 4 22 26 Community 02 : 3 10 18 19 20 44 52 69 104 Community 03 : 8 18 Community 04 : 10 52 105 Community 05 : 13 18 Community 06 : 15 18 52 Community 07 : 16 18 Community 08 : 18 19 20 22 26 27 28 29 32 33 42 44 49 51 52 55 60 69 71 76 88 103 104 105 Community 09 : 25 27 28 32 Community 10 : 44 80 88 ========================= [ FAIL 1 | WARN 13 | SKIP 0 | PASS 115 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-Facebook.R:22:3'): Facebook Network Analysis ─────────────────── Error in `value[[3L]](cond)`: Error in reading GML file: /srv/hornik/tmp/CRAN/arlclustering.Rcheck/arlclustering/extdata/facebook.gml At vendor/cigraph/src/io/gml.c:454 : Parse error in GML file, line 3 (syntax error, unexpected keyword, expecting string or number or [), Parse error Backtrace: ▆ 1. ├─microbenchmark::microbenchmark(...) at test-Facebook.R:22:3 2. └─arlclustering::arlc_get_network_dataset(dataset_path, "Facebook") 3. └─base::tryCatch(...) 4. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 5. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 6. └─value[[3L]](cond) [ FAIL 1 | WARN 13 | SKIP 0 | PASS 115 ] Error: Test failures Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [20s/20s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘ChanFacebook-Dataset.Rmd’ using rmarkdown --- finished re-building ‘ChanFacebook-Dataset.Rmd’ --- re-building ‘Dolphins-Dataset.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN/arlclustering.Rcheck/vign_test/arlclustering/vignettes/Dolphins-Dataset_files/figure-html/unnamed-chunk-8-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10103 bytes Input file size = 10193 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7504 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7504 Output IDAT size = 7504 bytes (2599 bytes decrease) Output file size = 7582 bytes (2611 bytes = 25.62% decrease) --- finished re-building ‘Dolphins-Dataset.Rmd’ --- re-building ‘Facebook-Dataset.Rmd’ using rmarkdown Quitting from lines 28-34 [unnamed-chunk-2] (Facebook-Dataset.Rmd) Error: processing vignette 'Facebook-Dataset.Rmd' failed with diagnostics: Error in reading GML file: /srv/hornik/tmp/CRAN/arlclustering.Rcheck/arlclustering/extdata/facebook.gml At vendor/cigraph/src/io/gml.c:454 : Parse error in GML file, line 3 (syntax error, unexpected keyword, expecting string or number or [), Parse error --- failed re-building ‘Facebook-Dataset.Rmd’ --- re-building ‘General-Introduction.Rmd’ using rmarkdown --- finished re-building ‘General-Introduction.Rmd’ --- re-building ‘Karate-Dataset.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN/arlclustering.Rcheck/vign_test/arlclustering/vignettes/Karate-Dataset_files/figure-html/unnamed-chunk-8-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 9140 bytes Input file size = 9230 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6883 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6883 Output IDAT size = 6883 bytes (2257 bytes decrease) Output file size = 6961 bytes (2269 bytes = 24.58% decrease) --- finished re-building ‘Karate-Dataset.Rmd’ --- re-building ‘LesMiserables-Dataset.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN/arlclustering.Rcheck/vign_test/arlclustering/vignettes/LesMiserables-Dataset_files/figure-html/unnamed-chunk-8-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10140 bytes Input file size = 10230 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7787 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7787 Output IDAT size = 7787 bytes (2353 bytes decrease) Output file size = 7865 bytes (2365 bytes = 23.12% decrease) --- finished re-building ‘LesMiserables-Dataset.Rmd’ --- re-building ‘NetScience-Dataset.Rmd’ using rmarkdown --- finished re-building ‘NetScience-Dataset.Rmd’ SUMMARY: processing the following file failed: ‘Facebook-Dataset.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [0s/0s] OK * checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘log.txt’ * checking for detritus in the temp directory ... OK * DONE Status: 2 ERRORs, 3 NOTEs